VISDB Viral Integration Site DataBase

VIS ID

TVIS20004294

Fusion event

HPV-CEACAM19 integration

Validated

Yes

Detection method

WGS, RNA-seq, Whole-Exome sequencing, PCR

Data source

Curated

Sample type

Disease

Head and neck squamous cell carcinoma (HNSCC)

Quality evaluation

Perfect

Reported year

2014

PubMed ID

Virus name

HPV

Subtype

HPV16

Reference genome

Gene

L1

Start

5820

Integrated sequence

TTGCACGCACAAACATATATTATCATGCAGGAACATCCAGACTACTTGCAGTTGGACATCCCTATTTTCCTATTAAAAAACCTAACAATAACAAAATATT| |AGTTCCTAAAGTATCAGGATTACAATACAGGGTATTTAGAATACATTTACCTGACCCCAATAAGTTTGGTTTTCCTGACACCTCATTTTATAATCCAGAT

Chromosome

chr19

Cytoband

q13.31

Reference genome

Start

End

45175831/44672559 (Hg38)

Location type

Intronic

Fragile sites / regions

Target gene

miRNAs that regulate target gene

hsa-mir-1197 ; hsa-mir-1913 ; hsa-mir-3189-5p ; hsa-mir-324-3p ; hsa-mir-4436a ; hsa-mir-4722-3p ; hsa-mir-4755-3p ; hsa-mir-4758-3p ; hsa-mir-5000-3p ; hsa-mir-5006-5p ; hsa-mir-5699-5p ; hsa-mir-6727-3p

Nearest miRNA

hsa-mir-10395/Upstream/18827; hsa-let-7e/Downstream/86098;

Nearest TSS

Nearest CpG islands

None/Target, chr19-CpG: 112/Upstream/24997, chr19-CpG: 20/Downstream/31497

Junction sequence